genome.fa.s293.2.7.7.80.10.50.1000.8.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1341 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094116--1094148	13	2.5	13	95	0	57	30	6	45	18	1.73
1096275--1096332	24	2.3	26	91	5	93	32	24	15	27	1.95
1096318--1096386	27	2.5	26	77	9	75	23	8	21	46	1.79
1096374--1096419	24	1.9	24	91	8	76	23	8	21	45	1.80
1100874--1100931	24	2.3	26	91	5	93	32	25	15	25	1.95
1100921--1100986	27	2.4	27	89	0	96	24	10	19	45	1.82
1100972--1101017	24	1.9	24	91	8	76	23	8	21	45	1.80
1101819--1101860	20	2.1	20	86	0	57	61	0	2	35	1.09
1101938--1101974	19	1.9	19	100	0	74	40	10	5	43	1.63
1103288--1103344	24	2.5	24	81	18	68	35	12	3	49	1.58
1103713--1103771	28	2.1	28	81	6	66	45	1	1	50	1.21
1104976--1105061	27	3.4	26	68	15	81	33	1	3	61	1.20
1104978--1105072	49	2.0	47	91	4	154	34	1	4	60	1.23
1105918--1105950	12	2.6	13	85	9	50	69	9	0	21	1.15
1106683--1106716	3	11.3	3	100	0	68	67	0	0	32	0.91
1106834--1106885	24	2.2	23	83	13	61	40	5	0	53	1.25
1109286--1109357	22	3.3	22	69	13	58	31	1	4	62	1.23
1109307--1109413	14	7.4	14	69	21	60	30	1	2	64	1.18
1112284--1112330	2	23.5	2	100	0	94	48	0	0	51	1.00
1113156--1113760	303	2.0	303	86	2	849	35	8	10	45	1.69
1114432--1114481	26	1.9	26	95	0	91	46	0	4	50	1.20
1115138--1115172	16	2.2	16	94	0	61	77	11	2	8	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115130--1115176	16	3.1	15	82	8	60	76	8	2	12	1.09
1115203--1115229	2	13.5	2	100	0	54	48	0	0	51	1.00
1115490--1115525	16	2.2	17	90	5	56	75	5	0	19	1.00
1115559--1115590	5	6.8	5	86	13	50	21	0	0	78	0.76
1118294--1118342	17	2.8	18	75	12	57	48	0	2	48	1.12
1121021--1121094	32	2.3	33	83	2	87	12	9	27	51	1.70
1121068--1121098	16	1.9	16	93	0	53	3	9	35	51	1.51
1121286--1121325	18	2.2	18	86	8	55	50	2	2	45	1.28
1121465--1121506	12	3.6	11	84	15	50	50	7	0	42	1.30
1122439--1122489	16	3.2	16	91	0	84	5	15	31	47	1.70
1122515--1122555	16	2.6	16	84	0	64	21	12	21	43	1.85
1125374--1125423	26	1.9	26	88	8	75	44	2	4	50	1.32
1126082--1126130	17	2.9	17	84	6	55	77	6	2	14	1.05
1126082--1126115	18	1.9	17	88	5	50	76	2	0	20	0.92
1126913--1126959	16	3.1	15	82	8	60	76	6	2	14	1.08
1126921--1126955	16	2.2	16	94	0	61	77	8	2	11	1.10
1127211--1127278	19	3.8	19	67	13	63	54	2	7	35	1.43
1128878--1128917	14	2.9	14	88	0	62	22	0	2	75	0.93
1132008--1132080	32	2.3	33	83	9	89	64	6	1	27	1.27
1132045--1132103	22	2.6	22	73	19	59	62	10	0	27	1.27
1132404--1132439	19	1.9	19	94	5	65	36	0	0	63	0.94
1132407--1132447	18	2.3	19	87	8	59	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132428--1132585	75	2.1	75	83	9	198	44	1	0	53	1.13
1132694--1132731	14	2.7	15	88	12	62	52	0	0	47	1.00
1132694--1132736	14	3.1	14	86	10	61	48	0	0	51	1.00
1132969--1133007	13	2.9	13	85	14	53	48	0	0	51	1.00
1132675--1133401	268	2.7	268	89	3	1075	41	12	7	37	1.73
1133236--1133276	14	2.9	14	85	10	57	46	0	0	53	1.00
1133644--1133684	2	20.5	2	100	0	82	48	0	0	51	1.00
1133766--1133806	19	2.2	19	90	0	64	63	7	4	24	1.40
1134210--1134253	2	22.0	2	100	0	88	50	0	0	50	1.00
1135360--1135397	18	2.1	18	95	0	67	44	0	23	31	1.54
1135680--1135716	14	2.6	14	86	0	56	21	0	2	75	0.92
1135869--1136007	67	2.1	67	89	2	208	43	8	7	40	1.65
1136324--1136365	18	2.4	18	92	4	68	35	0	0	64	0.94
1139431--1139493	22	3.0	22	73	17	62	47	0	0	52	1.00
1140642--1140691	15	3.3	15	91	0	82	20	12	50	18	1.78
1141668--1141730	33	1.9	33	83	6	83	61	3	4	30	1.32
1146593--1146638	13	3.3	15	72	27	55	63	0	0	36	0.95
1146586--1146638	27	2.0	25	92	7	88	66	0	0	33	0.92
1146595--1146638	14	3.2	14	81	18	65	63	0	0	36	0.95
1148990--1149037	15	3.0	16	78	9	62	66	0	0	33	0.92
1151194--1151255	18	3.4	18	76	10	65	30	3	1	64	1.19
1151204--1151339	65	2.2	63	77	12	140	34	2	3	59	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152000--1152029	13	2.3	13	100	0	60	30	0	6	63	1.20
1154051--1154119	2	34.5	2	94	0	120	47	0	1	50	1.09
1160965--1161011	24	2.0	23	84	12	60	51	2	0	46	1.13
1160958--1161011	26	2.2	23	81	15	56	50	1	0	48	1.11
1164333--1164408	27	2.8	27	79	0	89	19	31	17	31	1.95
1164378--1164530	54	2.8	54	86	0	207	17	32	20	29	1.96
1164341--1164570	27	8.5	27	74	0	174	17	32	19	31	1.95
1164341--1164570	54	4.3	54	82	1	201	17	32	19	31	1.95
1167093--1167136	21	2.2	20	80	11	54	38	2	2	56	1.24
1168256--1168307	7	6.7	7	81	16	59	15	1	1	80	0.88
1168254--1168316	33	1.9	33	93	6	110	15	3	3	77	1.02
1168861--1168899	8	4.9	8	84	9	53	84	0	2	12	0.72
1169218--1169253	19	1.9	19	88	5	56	55	0	0	44	0.99
1169226--1169290	29	2.2	29	83	5	78	47	0	0	52	1.00
1169246--1169291	15	3.1	15	79	17	60	45	0	0	54	0.99
1169811--1169876	15	4.3	15	78	14	73	42	3	1	53	1.25
1172653--1172706	28	2.1	25	83	13	65	40	9	9	40	1.69
1178410--1178444	2	17.5	2	100	0	70	51	0	48	0	1.00
1178958--1178999	3	14.0	3	100	0	84	66	0	0	33	0.92
1180504--1180541	20	1.9	20	84	10	51	52	2	0	44	1.14
1181128--1181155	2	14.0	2	100	0	56	50	0	50	0	1.00
1182273--1182337	31	2.1	32	82	2	78	35	1	3	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182306--1182399	38	2.6	36	82	14	104	32	1	2	63	1.13
1182298--1182412	49	2.4	49	81	9	123	33	1	1	63	1.15
1182377--1182422	22	2.0	24	83	8	60	34	6	0	58	1.24
1183188--1183213	3	8.7	3	100	0	52	69	0	0	30	0.89
1202131--1202205	24	3.1	23	75	17	64	64	0	0	36	0.94
1203710--1203741	2	16.0	2	100	0	64	50	0	0	50	1.00
1205515--1205548	6	5.7	6	100	0	68	17	64	0	17	1.29
1206395--1206435	18	2.3	17	87	8	55	58	2	0	39	1.11
1206393--1206451	24	2.4	25	83	13	77	61	1	0	37	1.07
1206375--1206453	30	2.7	29	74	14	74	58	3	0	37	1.16
1207018--1207064	19	2.4	18	80	19	51	70	0	0	29	0.88
1210115--1210147	6	5.5	6	96	0	57	27	0	33	39	1.57
1211003--1211044	22	1.9	22	85	0	57	47	0	0	52	1.00
1211053--1211125	33	2.3	30	78	13	83	52	1	2	43	1.24
1211075--1211160	20	4.2	20	74	15	77	53	1	1	44	1.15
1211104--1211164	23	2.8	22	76	13	72	50	0	3	45	1.17
1211703--1211744	16	2.6	16	81	7	50	54	2	7	35	1.41
1212915--1212976	24	2.6	23	75	14	54	58	0	1	40	1.08
1219000--1219069	32	2.2	32	80	10	81	51	0	10	38	1.36
1221204--1221233	14	2.1	14	100	0	60	0	0	6	93	0.35
1225210--1225237	13	2.2	13	100	0	56	42	0	0	57	0.99
1227399--1227455	21	2.7	22	77	20	68	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227401--1227455	20	2.7	21	78	15	62	38	0	0	61	0.96
1228754--1228794	2	20.5	2	94	0	73	48	0	0	51	1.00
1229718--1229774	21	2.7	21	73	10	62	57	8	0	33	1.29
1230104--1230358	21	12.2	21	72	9	128	54	5	3	36	1.41
1230240--1230341	9	10.1	9	70	19	60	58	4	0	36	1.19
1230208--1230358	63	2.4	62	80	6	178	56	3	0	38	1.23
1230208--1230379	42	4.1	41	85	3	209	56	5	0	36	1.27
1230241--1230372	21	6.3	20	75	9	104	57	6	0	35	1.25
1235466--1235494	5	5.8	5	100	0	58	82	0	0	17	0.66
1238843--1238872	10	3.0	10	95	0	51	76	0	0	23	0.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12